Hartman J

Family name	Hartman
Given name	Johan
Initials	J
ORCID	ORCID 0000-0002-6500-8527
Affiliations

17 publications

PubMed DOI Crossref

Transcriptomic profiles of endocrine-resistant breast cancer.

Schagerholm Stanev C, Sifakis EG, Hases L, ..., Robertson S, Hartman J

BMC Cancer 25 (1) 1556 [2025-10-13; online 2025-10-13]

PubMed DOI Crossref

Computational pathology annotation enhances the resolution and interpretation of breast cancer spatial transcriptomics data.

Li T, Yang Q, Acs B, ..., Chen X, Hartman J

NPJ Precis Oncol 9 (1) 310 [2025-09-09; online 2025-09-09]

Camilla Engblom SciLifeLab Fellow

PubMed DOI Crossref

Author Correction: Integrative spatial and genomic analysis of tumor heterogeneity with Tumoroscope.

Shafighi S, Geras A, Jurzysta B, ..., Lagergren J, Szczurek E

Nat Commun 16 (1) 2801 [2025-03-21; online 2025-03-21]

Camilla Engblom SciLifeLab Fellow

PubMed DOI Crossref

Integrative spatial and genomic analysis of tumor heterogeneity with Tumoroscope.

Shafighi S, Geras A, Jurzysta B, ..., Lagergren J, Szczurek E

Nat Commun 15 (1) 9343 [2024-10-29; online 2024-10-29]

Camilla Engblom SciLifeLab Fellow

PubMed DOI Crossref

The ACROBAT 2022 challenge: Automatic registration of breast cancer tissue.

Weitz P, Valkonen M, Solorzano L, ..., Ruusuvuori P, Rantalainen M

Med Image Anal 97 (-) 103257 [2024-10-00; online 2024-07-01]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Spatial transcriptomics of B cell and T cell receptors reveals lymphocyte clonal dynamics.

Engblom C, Thrane K, Lin Q, ..., Lundeberg J, Frisén J

Science (New York, N.Y.) 382 (6675) eadf8486 [2023-12-08; online 2023-12-08]

Camilla Engblom SciLifeLab Fellow

PubMed DOI Crossref

A Multi-Stain Breast Cancer Histological Whole-Slide-Image Data Set from Routine Diagnostics.

Weitz P, Valkonen M, Solorzano L, ..., Ruusuvuori P, Rantalainen M

Sci Data 10 (1) 562 [2023-08-24; online 2023-08-24]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Solid-phase capture and profiling of open chromatin by spatial ATAC.

Llorens-Bobadilla E, Zamboni M, Marklund M, ..., Frisén J, Ståhl PL

Nat. Biotechnol. 41 (8) 1085-1088 [2023-08-00; online 2023-01-05]

PubMed DOI Crossref

Reconstructing clonal tree for phylo-phenotypic characterization of cancer using single-cell transcriptomics.

Jun SH, Toosi H, Mold J, ..., Roth A, Lagergren J

Nat Commun 14 (1) 982 [2023-02-22; online 2023-02-22]

Camilla Engblom SciLifeLab Fellow

DOI Crossref

Spatial transcriptomics of T and B cell receptors uncovers lymphocyte clonal dynamics in human tissue

Engblom C, Thrane K, Lin Q, ..., Lundeberg J, Frisén J

- - (-) - [2022-11-24; online 2022-11-24]

Camilla Engblom SciLifeLab Fellow

DOI Crossref

Tumoroscope: a probabilistic model for mapping cancer clones in tumor tissues

Shafighi SD, Geras A, Jurzysta B, ..., Lagergren J, Szczurek E

- - (-) - [2022-09-23; online 2022-09-23]

Camilla Engblom SciLifeLab Fellow

PubMed DOI Crossref

High prevalence of somatic PIK3CA and TP53 pathogenic variants in the normal mammary gland tissue of sporadic breast cancer patients revealed by duplex sequencing.

Kostecka A, Nowikiewicz T, Olszewski P, ..., Dumanski JP, Piotrowski A

NPJ Breast Cancer 8 (1) 76 [2022-06-29; online 2022-06-29]

PubMed DOI Crossref

Interplay between copy number alterations and immune profiles in the early breast cancer Scandinavian Breast Group 2004-1 randomized phase II trial: results from a feasibility study.

Zerdes I, Simonetti M, Matikas A, ..., Crosetto N, Foukakis T

NPJ Breast Cancer 7 (1) 144 [2021-11-19; online 2021-11-19]

PubMed DOI Crossref

Predicting Molecular Phenotypes from Histopathology Images: A Transcriptome-Wide Expression-Morphology Analysis in Breast Cancer.

Wang Y, Kartasalo K, Weitz P, ..., Hartman J, Rantalainen M

Cancer Res. 81 (19) 5115-5126 [2021-10-01; online 2021-08-02]

DDLS Fellow Kimmo Kartasalo

DOI Crossref

High prevalence of somatic PIK3CA and TP53 pathogenic variants in the normal mammary gland tissue of sporadic breast cancer patients revealed by duplex sequencing

Kostecka A, Nowikiewicz T, Olszewski P, ..., Dumanski JP, Piotrowski A

- - (-) - [2021-09-27; online 2021-09-27]

PubMed DOI Crossref

Thermal Proteome Profiling Identifies Oxidative-Dependent Inhibition of the Transcription of Major Oncogenes as a New Therapeutic Mechanism for Select Anticancer Compounds.

Peuget S, Zhu J, Sanz G, ..., Zubarev R, Selivanova G

Cancer Res. 80 (7) 1538-1550 [2020-04-01; online 2020-02-04]

PubMed DOI Crossref

CUTseq is a versatile method for preparing multiplexed DNA sequencing libraries from low-input samples.

Zhang X, Garnerone S, Simonetti M, ..., Bienko M, Crosetto N

Nat Commun 10 (1) 4732 [2019-10-18; online 2019-10-18]

Magda Bienko SciLifeLab Fellow